Introduction

Some Informations about the projekt here would be really nice.

Analysis

2.1a Fraction of Xenelogs vs. Number of Genes

Short description of the task at hand.

Tab. 1: Dependecy of the size of the gene tree in respect to th number of species. Results of for each Group, slope und intercept of a linear model were calculated as well as the spearman correlation value.
Group Duplication_Rate Loss_Rate HGT_Rate Slope Intercept Spearman_Corr
P0 0.25 0.25 0.25 0.0014 0.23 0.21
P1 0.50 0.50 0.50 -0.0009 0.39 0.05
P2 0.50 0.50 1.00 -0.0012 0.48 -0.02
P3 0.50 0.50 1.50 -0.0021 0.58 -0.16
P4 1.00 1.00 0.50 -0.0011 0.40 0.04
P5 1.00 1.00 1.00 -0.0016 0.53 -0.14
P6 1.50 1.50 1.50 -0.0016 0.57 -0.24

2.1a Plots: Fraction of Xenelogs vs. Number of Genes

Each plot needs a short discription. This can be done here. Maybe it is better not to iterate over the goups. maybe we should split the following coe into \(7\) seperate sektions, so we can write a custom text for each. But I guess an overall discription is fine as well... less work ;)

Some text here. . .

2.1a Fraction of Xenologs vs. Number of Genes

Each plot needs a short discription. This can be done here. Maybe it is better not to iterate over the groups. Maybe we should split the following code into \(7\) seperate sektions, so we can write a custom text for each.

Tab. 2: Dependecy of the size of the gene tree in respect to th number of species. Results of for each Group, slope und intercept of a linear model were calculated as well as the spearman correlation value.
Group Duplication_Rate Loss_Rate HGT_Rate Slope Intercept Spearman_Corr
P0 0.25 0.25 0.25 0.0015 0.23 0.09
P1 0.50 0.50 0.50 0.0004 0.34 0.04
P2 0.50 0.50 1.00 0.0004 0.42 0.02
P3 0.50 0.50 1.50 -0.0022 0.55 -0.09
P4 1.00 1.00 0.50 0.0002 0.34 0.02
P5 1.00 1.00 1.00 -0.0016 0.49 -0.04
P6 1.50 1.50 1.50 0.0001 0.46 0.00

2.1a Plots: Fraction of Xenelogs vs. Number of Species

Each plot needs a short discription. This can be done here. Maybe it is better not to iterate over the groups. Maybe we should split the following code into \(7\) seperate sections, so we can write a custom text for each. But I guess an overall discription is fine as well... less work ;)

Some text here. . .

2.2b Fraction of Xenelogs with fixed HGT

Some text was was done here. And maybe why?

Duplication Rate

Short introduction

Boxplot of the Fraction of Xenologs plotted against the duplication rate with a fixed horizontal gene transfer (HGT) rate. The different colors marking the groups with the same HGT rate.

Boxplot of the Fraction of Xenologs plotted against the duplication rate with a fixed horizontal gene transfer (HGT) rate. The different colors marking the groups with the same HGT rate.

In XX we see examples of plotting in R. Explanation of the graph

Loss Rate

Short introduction

Boxplot of the Fraction of Xenologs plotted against the loss rate with a fixed horizontal gene transfer (HGT) rate. The different colors marking the groups with the same HGT rate.

Boxplot of the Fraction of Xenologs plotted against the loss rate with a fixed horizontal gene transfer (HGT) rate. The different colors marking the groups with the same HGT rate.

In XX we see examples of plotting in R. Explanation of the graph

2.2c